Structural perturbation of chromatin domains with multiple developmental regulators can severely impact gene regulation and development [RNA-seq-brain]
RNA-seq (gene expression) · mouse · 14 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 14 samples
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Structural perturbation of chromatin domains with multiple developmental regulators can severely impact gene regulation and developmentbioRxiv : the preprint server for biology · 2024
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE274231_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1145434 and SRA study SRP524823. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 14 more — browse all 14 samples with per-sample file links →
- GSE274230 Structural perturbation of chromatin domains with multiple developmental regulators can severely impact gene regulation and development [RNA-seq-blastocyst] 16 samples shares perturbation, structural, regulators, chromatin, multiple, severely, domains
- GSE271760 Structural perturbation of chromatin domains with multiple developmental regulators can severely impact gene regulation and development 88 samples shares perturbation, structural, regulators, chromatin, multiple, severely, domains
- GSE278563 Interaction between long-range chromatin regulators Nipbl & Isl1 synergistically drives heart defects in mice 37 samples shares regulators, chromatin
- GSE259290 High throughput CRISPR perturbation screens identify epigenetic regulators impacting primordial germ cell development [RNA-seq] 15 samples shares perturbation, regulators
- GSE297861 ChAHP Displaces Transcriptional Regulators Through Active Chromatin Remodeling [ChIPseq] 55 samples shares regulators, chromatin
- GSE283958 Cohesin recruitment to promoters and enhancers by general transcription factors and chromatin regulators 47 samples shares regulators, chromatin
- GSE339197 Transcription-dependent heterochromatin at the Xist promoter shapes the random choice of the inactive X chromosome [Regulators_KD_CutnTag] 44 samples shares regulators, chromatin
- GSE339202 Transcription-dependent heterochromatin at the Xist promoter shapes the random choice of the inactive X chromosome [Xist-Tsix-perturbations_CutnTag] 42 samples shares perturbation, chromatin
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.